Cycledash v0.2.0

This release of Cycledash improves the design of our Runs & Examine page, adds new tracks to pileup.js, adds a new variant annotator to Cycledash, conducts automated visual tests using SauceLabs and TravisCI, adds support for database migrations, and user registration and authentication.

Cycledash v0.1.0

Cycledash v0.1.0

This release of Cycledash is focused on bug fixing, stabilization, and improving our API. We've also built a new pileup viewer/genome browser called pileup.js and incorporated it into Cycledash.

• New UI for managing collections of runs in projects.
• New API for submitting runs, bams, and projects.
• pileup.js incorporated into the Examine page, making viewing genomes easier and faster than ever.
• Many bug fixes and features which make recovering from errors easier.
• Our test coverage is over 75%, up from 40%.

Release v0.0.0

CycleDash provides an interface for visualization and comparison of somatic variant VCF files.

This is the initial release of CycleDash!

CycleDash provides the following features:

• Upload VCF files from the local filesystem or HDFS.
• Viewing of VCFs' variants in a tabular format.
• Uses pysensembl to annotate variants with the genes they fall in.
• Interactively filter, sort, and select variants with a SQL-like query language.
• Comment on interesting variants.
• Download the filtered calls to a VCF file.
• If a tumor/normal BAM pair is provided, display read pileups at variant locations.
• Compare VCFs to a validation VCF by showing precision/recall/f1score and other stats.
• Exposes a RESTful API for submitting and querying runs.
• Generation of BAI index files for faster interactive pileup viewing.